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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2024-10-17, 15:58 BST based on data in: /home/conor_scott_2204/Hucking_18SV4/Hucking_18SV4_qc_out


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        General Statistics

        Showing 0/464 rows and 3/6 columns.
        Sample NameDupsGCAvg lenMedian lenFailedSeqs
        F100SL_1
        97.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F100SL_2
        95.9%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F100SU_1
        96.6%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F100SU_2
        95.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F101SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F101SL_2
        96.9%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F102SL_1
        98.3%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F102SL_2
        97.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F102SU_1
        97.5%
        44.0%
        223bp
        223bp
        36%
        0.0M
        F102SU_2
        97.5%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F103SL_1
        97.7%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F103SL_2
        97.3%
        47.0%
        221bp
        221bp
        36%
        0.1M
        F103SU_1
        97.6%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F103SU_2
        96.9%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F104SL_1
        98.1%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F104SL_2
        97.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F104SU_1
        96.6%
        46.0%
        222bp
        222bp
        36%
        0.2M
        F104SU_2
        95.6%
        45.0%
        222bp
        222bp
        36%
        0.2M
        F105SL_1
        98.1%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F105SL_2
        97.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F105SU_1
        98.3%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F105SU_2
        97.4%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F106SL_1
        98.8%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F106SL_2
        98.8%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F106SU_1
        97.0%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F106SU_2
        96.1%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F107SL_1
        97.9%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F107SL_2
        97.6%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F107SU_1
        98.4%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F107SU_2
        98.6%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F108SL_1
        98.3%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F108SL_2
        98.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F108SU_1
        98.2%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F108SU_2
        97.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F109SL_1
        98.4%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F109SL_2
        98.1%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F109SU_1
        97.5%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F109SU_2
        96.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F10SL_1
        97.4%
        52.0%
        223bp
        223bp
        36%
        0.1M
        F10SL_2
        96.9%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F10SU_1
        98.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F10SU_2
        97.5%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F110SL_1
        98.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F110SL_2
        98.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F110SU_1
        96.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F110SU_2
        95.6%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F111SL_1
        98.5%
        44.0%
        223bp
        223bp
        36%
        0.1M
        F111SL_2
        98.4%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F111SU_1
        97.9%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F111SU_2
        97.8%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F112SL_1
        98.2%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F112SL_2
        97.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F112SU_1
        96.1%
        44.0%
        222bp
        222bp
        36%
        0.2M
        F112SU_2
        95.6%
        42.0%
        221bp
        221bp
        36%
        0.2M
        F113SL_1
        97.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F113SL_2
        97.4%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F113SU_1
        97.1%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F113SU_2
        96.4%
        44.0%
        221bp
        221bp
        36%
        0.1M
        F114SL_1
        97.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F114SL_2
        97.1%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F114SU_1
        97.8%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F114SU_2
        97.7%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F115SL_1
        97.2%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F115SL_2
        96.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F115SU_1
        97.6%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F115SU_2
        97.3%
        43.0%
        221bp
        221bp
        36%
        0.1M
        F116SU_1
        96.6%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F116SU_2
        96.2%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F117SU_1
        98.9%
        44.0%
        223bp
        223bp
        36%
        0.1M
        F117SU_2
        98.9%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F118SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F118SL_2
        97.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F118SU_1
        97.2%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F118SU_2
        96.4%
        44.0%
        221bp
        221bp
        36%
        0.1M
        F119SL_1
        98.3%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F119SL_2
        97.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F119SU_1
        97.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F119SU_2
        96.6%
        45.0%
        221bp
        221bp
        36%
        0.1M
        F11SL_1
        97.1%
        48.0%
        223bp
        223bp
        45%
        0.1M
        F11SL_2
        96.4%
        46.0%
        222bp
        222bp
        45%
        0.1M
        F11SU_1
        95.5%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F11SU_2
        94.6%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F120SL_1
        95.3%
        48.0%
        223bp
        223bp
        36%
        0.0M
        F120SL_2
        94.0%
        47.0%
        222bp
        222bp
        36%
        0.0M
        F120SU_1
        97.2%
        45.0%
        223bp
        223bp
        36%
        0.0M
        F120SU_2
        96.6%
        43.0%
        222bp
        222bp
        36%
        0.0M
        F12SL_1
        98.4%
        53.0%
        223bp
        223bp
        36%
        0.1M
        F12SL_2
        98.3%
        51.0%
        222bp
        222bp
        36%
        0.1M
        F12SU_1
        95.0%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F12SU_2
        93.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F13SL_1
        97.1%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F13SL_2
        96.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F13SU_1
        97.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F13SU_2
        97.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F14SL_1
        97.5%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F14SL_2
        97.2%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F14SU_1
        96.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F14SU_2
        95.3%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F15SL_1
        97.0%
        50.0%
        223bp
        223bp
        36%
        0.1M
        F15SL_2
        96.8%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F15SU_1
        96.2%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F15SU_2
        95.0%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F16SL_1
        98.2%
        51.0%
        223bp
        223bp
        36%
        0.1M
        F16SL_2
        98.2%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F16SU_1
        96.5%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F16SU_2
        95.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F17SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F17SL_2
        97.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F17SU_1
        95.2%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F17SU_2
        93.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F18SL_1
        97.7%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F18SL_2
        97.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F18SU_1
        96.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F18SU_2
        94.8%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F19SL_1
        97.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F19SL_2
        97.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F19SU_1
        96.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F19SU_2
        95.3%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F1SL_1
        95.8%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F1SL_2
        95.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F1SU_1
        98.2%
        51.0%
        223bp
        223bp
        36%
        0.1M
        F1SU_2
        97.7%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F20SL_1
        97.1%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F20SL_2
        96.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F20SU_1
        95.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F20SU_2
        94.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F21SL_1
        98.0%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F21SL_2
        97.2%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F21SU_1
        97.2%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F21SU_2
        96.1%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F22SL_1
        97.0%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F22SL_2
        96.0%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F22SU_1
        97.3%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F22SU_2
        96.4%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F23SL_1
        97.4%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F23SL_2
        97.2%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F23SU_1
        96.1%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F23SU_2
        95.3%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F24SL_1
        97.2%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F24SL_2
        96.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F24SU_1
        97.7%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F24SU_2
        97.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F25SL_1
        97.7%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F25SL_2
        97.1%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F25SU_1
        97.9%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F25SU_2
        97.2%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F26SL_1
        98.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F26SL_2
        97.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F26SU_1
        97.1%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F26SU_2
        96.3%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F27SL_1
        97.4%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F27SL_2
        96.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F27SU_1
        97.7%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F27SU_2
        96.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F28SL_1
        99.0%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F28SL_2
        98.4%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F28SU_1
        96.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F28SU_2
        96.3%
        43.0%
        221bp
        221bp
        36%
        0.1M
        F29SL_1
        98.1%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F29SL_2
        96.9%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F29SU_1
        96.6%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F29SU_2
        96.0%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F2SL_1
        95.4%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F2SL_2
        94.6%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F2SU_1
        95.1%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F2SU_2
        93.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F30SL_1
        98.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F30SL_2
        98.4%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F30SU_1
        98.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F30SU_2
        97.3%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F31SL_1
        96.7%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F31SL_2
        96.3%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F31SU_1
        81.3%
        49.0%
        223bp
        223bp
        45%
        0.0M
        F31SU_2
        81.6%
        48.0%
        222bp
        222bp
        45%
        0.0M
        F32SL_1
        98.2%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F32SL_2
        98.2%
        48.0%
        221bp
        221bp
        36%
        0.1M
        F32SU_1
        97.5%
        47.0%
        223bp
        223bp
        27%
        0.1M
        F32SU_2
        97.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F33SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F33SL_2
        96.6%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F33SU_1
        95.8%
        47.0%
        221bp
        222bp
        36%
        0.1M
        F33SU_2
        95.3%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F34SL_1
        97.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F34SL_2
        97.7%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F34SU_1
        96.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F34SU_2
        96.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F35SL_1
        98.1%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F35SL_2
        97.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F35SU_1
        97.0%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F35SU_2
        96.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F36SL_1
        98.9%
        37.0%
        223bp
        223bp
        36%
        0.1M
        F36SL_2
        98.8%
        36.0%
        222bp
        222bp
        36%
        0.1M
        F36SU_1
        96.5%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F36SU_2
        96.0%
        44.0%
        221bp
        221bp
        36%
        0.1M
        F37SL_1
        98.0%
        47.0%
        222bp
        222bp
        36%
        0.4M
        F37SL_2
        98.0%
        46.0%
        221bp
        221bp
        36%
        0.4M
        F37SU_1
        98.8%
        38.0%
        223bp
        223bp
        36%
        0.1M
        F37SU_2
        98.9%
        37.0%
        222bp
        222bp
        36%
        0.1M
        F38SL_1
        98.0%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F38SL_2
        97.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F38SU_1
        97.6%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F38SU_2
        97.1%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F39SL_1
        97.6%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F39SL_2
        97.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F39SU_1
        96.8%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F39SU_2
        96.4%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F3SL_1
        96.7%
        46.0%
        223bp
        223bp
        36%
        0.0M
        F3SL_2
        96.0%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F3SU_1
        96.7%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F3SU_2
        96.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F40SL_1
        96.8%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F40SL_2
        96.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F40SU_1
        97.9%
        51.0%
        222bp
        222bp
        36%
        0.1M
        F40SU_2
        97.4%
        50.0%
        221bp
        221bp
        36%
        0.1M
        F41SL_1
        98.3%
        49.0%
        222bp
        222bp
        36%
        0.2M
        F41SL_2
        98.3%
        47.0%
        221bp
        221bp
        36%
        0.2M
        F41SU_1
        98.6%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F41SU_2
        98.5%
        48.0%
        221bp
        221bp
        36%
        0.1M
        F42SL_1
        97.7%
        50.0%
        222bp
        222bp
        45%
        0.1M
        F42SL_2
        97.8%
        49.0%
        222bp
        222bp
        45%
        0.1M
        F42SU_1
        98.5%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F42SU_2
        98.4%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F43SL_1
        97.4%
        50.0%
        221bp
        222bp
        36%
        0.1M
        F43SL_2
        97.5%
        49.0%
        221bp
        221bp
        36%
        0.1M
        F43SU_1
        96.2%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F43SU_2
        94.9%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F44SL_1
        98.3%
        49.0%
        222bp
        222bp
        36%
        0.3M
        F44SL_2
        98.3%
        47.0%
        221bp
        221bp
        36%
        0.3M
        F44SU_1
        98.3%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F44SU_2
        98.2%
        47.0%
        221bp
        221bp
        36%
        0.1M
        F45SL_1
        97.5%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F45SL_2
        97.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F45SU_1
        97.9%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F45SU_2
        98.1%
        49.0%
        221bp
        221bp
        36%
        0.1M
        F46SL_1
        97.2%
        48.0%
        221bp
        222bp
        36%
        0.0M
        F46SL_2
        96.7%
        48.0%
        221bp
        221bp
        36%
        0.0M
        F46SU_1
        97.7%
        51.0%
        223bp
        223bp
        36%
        0.1M
        F46SU_2
        97.9%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F47SL_1
        97.7%
        44.0%
        223bp
        223bp
        36%
        0.1M
        F47SL_2
        96.8%
        41.0%
        222bp
        222bp
        36%
        0.1M
        F47SU_1
        97.3%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F47SU_2
        97.1%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F48SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F48SL_2
        97.4%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F48SU_1
        98.2%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F48SU_2
        97.7%
        41.0%
        222bp
        222bp
        36%
        0.1M
        F49SL_1
        97.7%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F49SL_2
        97.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F49SU_1
        97.7%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F49SU_2
        97.6%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F4SL_1
        96.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F4SL_2
        96.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F4SU_1
        95.6%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F4SU_2
        94.4%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F50SL_1
        94.3%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F50SL_2
        95.4%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F50SU_1
        94.2%
        44.0%
        223bp
        223bp
        36%
        0.0M
        F50SU_2
        93.8%
        43.0%
        222bp
        222bp
        36%
        0.0M
        F51SL_1
        97.9%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F51SL_2
        97.7%
        45.0%
        222bp
        222bp
        36%
        0.0M
        F51SU_1
        96.0%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F51SU_2
        95.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F52SL_1
        98.5%
        51.0%
        223bp
        223bp
        36%
        0.1M
        F52SL_2
        98.7%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F52SU_1
        93.8%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F52SU_2
        93.7%
        45.0%
        222bp
        222bp
        36%
        0.0M
        F53SU_1
        97.2%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F53SU_2
        97.2%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F54SL_1
        98.0%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F54SL_2
        98.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F54SU_1
        95.4%
        45.0%
        223bp
        223bp
        36%
        0.0M
        F54SU_2
        95.0%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F55SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F55SL_2
        97.4%
        43.0%
        222bp
        222bp
        36%
        0.1M
        F55SU_1
        96.3%
        45.0%
        223bp
        223bp
        36%
        0.0M
        F55SU_2
        95.7%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F56SL_1
        92.5%
        45.0%
        223bp
        223bp
        45%
        0.0M
        F56SL_2
        91.7%
        44.0%
        222bp
        222bp
        45%
        0.0M
        F56SU_1
        96.7%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F56SU_2
        96.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F57SL_1
        93.8%
        48.0%
        223bp
        223bp
        36%
        0.0M
        F57SL_2
        93.3%
        47.0%
        222bp
        222bp
        36%
        0.0M
        F57SU_1
        94.2%
        49.0%
        223bp
        223bp
        45%
        0.0M
        F57SU_2
        93.4%
        47.0%
        222bp
        222bp
        45%
        0.0M
        F58SL_1
        94.9%
        46.0%
        223bp
        223bp
        36%
        0.0M
        F58SL_2
        94.4%
        45.0%
        222bp
        222bp
        36%
        0.0M
        F58SU_1
        92.0%
        44.0%
        223bp
        223bp
        45%
        0.0M
        F58SU_2
        92.3%
        43.0%
        222bp
        222bp
        45%
        0.0M
        F59SL_1
        97.3%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F59SL_2
        97.3%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F59SU_1
        95.4%
        43.0%
        223bp
        223bp
        36%
        0.0M
        F59SU_2
        94.8%
        41.0%
        222bp
        222bp
        36%
        0.0M
        F5SL_1
        95.2%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F5SL_2
        94.7%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F5SU_1
        96.6%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F5SU_2
        95.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F60SL_1
        97.6%
        45.0%
        223bp
        223bp
        36%
        0.0M
        F60SL_2
        97.6%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F60SU_1
        95.2%
        46.0%
        223bp
        223bp
        36%
        0.0M
        F60SU_2
        95.1%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F61SU_1
        97.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F61SU_2
        96.7%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F62SL_1
        96.2%
        49.0%
        223bp
        223bp
        36%
        0.0M
        F62SL_2
        95.9%
        47.0%
        222bp
        222bp
        27%
        0.0M
        F62SU_1
        96.5%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F62SU_2
        96.5%
        45.0%
        222bp
        222bp
        36%
        0.0M
        F63SL_1
        96.0%
        48.0%
        223bp
        223bp
        36%
        0.0M
        F63SL_2
        95.7%
        48.0%
        222bp
        222bp
        36%
        0.0M
        F64SL_1
        96.9%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F64SL_2
        96.2%
        47.0%
        221bp
        221bp
        36%
        0.1M
        F64SU_1
        97.5%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F64SU_2
        96.9%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F65SL_1
        97.9%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F65SL_2
        97.3%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F65SU_1
        98.2%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F65SU_2
        97.6%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F66SL_1
        98.4%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F66SL_2
        98.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F66SU_1
        97.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F66SU_2
        96.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F67SL_1
        97.7%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F67SL_2
        97.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F67SU_1
        97.3%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F67SU_2
        96.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F68SL_1
        98.0%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F68SL_2
        97.5%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F68SU_1
        97.7%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F68SU_2
        97.2%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F69SL_1
        97.6%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F69SL_2
        97.4%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F69SU_1
        98.3%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F69SU_2
        97.8%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F6SL_1
        97.3%
        48.0%
        223bp
        223bp
        36%
        0.0M
        F6SL_2
        96.7%
        47.0%
        222bp
        222bp
        36%
        0.0M
        F6SU_1
        97.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F6SU_2
        96.3%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F70SL_1
        98.4%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F70SL_2
        98.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F70SU_1
        98.3%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F70SU_2
        97.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F71SL_1
        98.0%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F71SL_2
        97.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F71SU_1
        97.3%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F71SU_2
        96.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F72SL_1
        96.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F72SL_2
        95.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F72SU_1
        97.6%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F72SU_2
        96.8%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F73SL_1
        97.8%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F73SL_2
        97.8%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F73SU_1
        96.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F73SU_2
        95.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F74SL_1
        97.6%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F74SL_2
        97.4%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F74SU_1
        97.5%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F74SU_2
        97.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F75SL_1
        97.6%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F75SL_2
        97.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F75SU_1
        97.9%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F75SU_2
        97.5%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F76SL_1
        98.0%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F76SL_2
        98.0%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F76SU_1
        97.5%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F76SU_2
        96.7%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F77SL_1
        97.2%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F77SL_2
        97.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F77SU_1
        92.4%
        46.0%
        223bp
        223bp
        36%
        0.0M
        F77SU_2
        92.4%
        45.0%
        222bp
        222bp
        36%
        0.0M
        F78SL_1
        97.5%
        48.0%
        223bp
        223bp
        36%
        0.2M
        F78SL_2
        97.0%
        48.0%
        222bp
        222bp
        36%
        0.2M
        F78SU_1
        95.9%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F78SU_2
        94.9%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F79SL_1
        97.7%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F79SL_2
        97.9%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F79SU_1
        95.6%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F79SU_2
        95.0%
        44.0%
        222bp
        222bp
        36%
        0.0M
        F7SL_1
        95.5%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F7SL_2
        94.8%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F7SU_1
        97.1%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F7SU_2
        96.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F80SL_1
        97.2%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F80SL_2
        97.1%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F80SU_1
        97.6%
        44.0%
        223bp
        223bp
        36%
        0.1M
        F80SU_2
        97.7%
        44.0%
        221bp
        221bp
        36%
        0.1M
        F81SL_1
        97.5%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F81SL_2
        97.4%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F81SU_1
        96.8%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F81SU_2
        96.4%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F82SL_1
        97.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F82SL_2
        96.8%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F82SU_1
        97.7%
        44.0%
        223bp
        223bp
        36%
        0.1M
        F82SU_2
        96.7%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F83SL_1
        96.4%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F83SL_2
        96.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F83SU_1
        96.7%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F83SU_2
        95.4%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F84SL_1
        96.8%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F84SL_2
        95.7%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F84SU_1
        94.8%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F84SU_2
        93.1%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F85SL_1
        94.8%
        49.0%
        223bp
        223bp
        36%
        0.0M
        F85SL_2
        94.3%
        47.0%
        222bp
        222bp
        36%
        0.0M
        F85SU_1
        97.5%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F85SU_2
        96.7%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F86SL_1
        96.0%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F86SL_2
        94.9%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F86SU_1
        97.0%
        48.0%
        223bp
        223bp
        36%
        0.2M
        F86SU_2
        96.0%
        46.0%
        222bp
        222bp
        36%
        0.2M
        F87SL_1
        96.0%
        49.0%
        222bp
        222bp
        36%
        0.1M
        F87SL_2
        95.3%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F87SU_1
        96.0%
        48.0%
        222bp
        222bp
        36%
        0.2M
        F87SU_2
        95.1%
        47.0%
        222bp
        222bp
        36%
        0.2M
        F88SL_1
        97.7%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F88SL_2
        97.1%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F88SU_1
        94.6%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F88SU_2
        92.9%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F89SL_1
        96.9%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F89SL_2
        96.2%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F89SU_1
        95.6%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F89SU_2
        94.4%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F8SL_1
        95.8%
        49.0%
        223bp
        223bp
        36%
        0.1M
        F8SL_2
        95.3%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F8SU_1
        95.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F8SU_2
        94.3%
        44.0%
        221bp
        221bp
        36%
        0.1M
        F91SL_1
        97.7%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F91SL_2
        97.2%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F91SU_1
        96.9%
        44.0%
        223bp
        223bp
        36%
        0.0M
        F91SU_2
        96.1%
        43.0%
        222bp
        222bp
        36%
        0.0M
        F92SL_1
        95.4%
        49.0%
        223bp
        223bp
        36%
        0.0M
        F92SL_2
        95.2%
        48.0%
        222bp
        222bp
        36%
        0.0M
        F92SU_1
        96.1%
        48.0%
        222bp
        222bp
        36%
        0.0M
        F92SU_2
        95.3%
        47.0%
        222bp
        222bp
        36%
        0.0M
        F93SL_1
        97.8%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F93SL_2
        97.4%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F93SU_1
        96.8%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F93SU_2
        95.9%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F94SL_1
        97.4%
        46.0%
        223bp
        223bp
        36%
        0.2M
        F94SL_2
        96.6%
        46.0%
        222bp
        222bp
        36%
        0.2M
        F94SU_1
        97.2%
        46.0%
        223bp
        223bp
        36%
        0.1M
        F94SU_2
        96.2%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F95SL_1
        97.8%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F95SL_2
        97.1%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F95SU_1
        97.4%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F95SU_2
        96.7%
        47.0%
        222bp
        222bp
        36%
        0.1M
        F96SL_1
        97.1%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F96SL_2
        96.6%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F96SU_1
        98.3%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F96SU_2
        97.8%
        44.0%
        222bp
        222bp
        36%
        0.1M
        F97SL_1
        95.2%
        47.0%
        223bp
        223bp
        36%
        0.0M
        F97SL_2
        95.4%
        46.0%
        222bp
        222bp
        36%
        0.0M
        F97SU_1
        97.1%
        48.0%
        222bp
        222bp
        36%
        0.1M
        F97SU_2
        96.3%
        46.0%
        221bp
        221bp
        36%
        0.1M
        F98SL_1
        96.9%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F98SL_2
        96.0%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F98SU_1
        98.2%
        45.0%
        223bp
        223bp
        36%
        0.1M
        F98SU_2
        97.6%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F99SL_1
        96.7%
        47.0%
        223bp
        223bp
        36%
        0.1M
        F99SL_2
        96.1%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F99SU_1
        95.8%
        46.0%
        222bp
        222bp
        36%
        0.1M
        F99SU_2
        95.0%
        45.0%
        222bp
        222bp
        36%
        0.1M
        F9SL_1
        98.4%
        50.0%
        222bp
        222bp
        36%
        0.1M
        F9SL_2
        97.9%
        48.0%
        221bp
        221bp
        36%
        0.1M
        F9SU_1
        96.6%
        48.0%
        223bp
        223bp
        36%
        0.1M
        F9SU_2
        95.6%
        46.0%
        222bp
        222bp
        36%
        0.1M

        FastQC

        Version: 0.12.1

        Quality control tool for high throughput sequencing data.URL: http://www.bioinformatics.babraham.ac.uk/projects/fastqc

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Created with MultiQC

        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Created with MultiQC

        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Created with MultiQC

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Created with MultiQC

        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Created with MultiQC

        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

        Created with MultiQC

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (e.g. PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Created with MultiQC

        Overrepresented sequences by sample

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as overrepresented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Created with MultiQC

        Top overrepresented sequences

        Top overrepresented sequences across all samples. The table shows 20 most overrepresented sequences across all samples, ranked by the number of samples they occur in.

        Showing 0/20 rows and 3/3 columns.
        Overrepresented sequenceReportsOccurrences% of all reads
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGAACCTTGG
        219
        2560781
        5.8726%
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGAACTTCAG
        215
        4361442
        10.0020%
        AGCGACTCAATACCAATGCCCCCAACTATCCCTATTAATCATTACGGCGA
        209
        4249561
        9.7454%
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTG
        203
        547509
        1.2556%
        GACAATTGAATACTGATGCCCCCGACTGTCCCTATTAATCATTACGGCGG
        193
        569098
        1.3051%
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGAATTTTAG
        187
        685846
        1.5728%
        GACAATTAAATACTAATGCCCCCAACTATCCCTATTAATCATTACTTCGG
        187
        695507
        1.5950%
        GACTATGAAATACGAATGCCCCCGACTGTCCCTGTTAATCATTACTCCGA
        187
        1110730
        2.5472%
        TAGCGTATATTAAAGTTGCTGCAGTTAAAAAGCTCGTAGTTGGATTTCTG
        185
        257624
        0.5908%
        GACAATTGAATACTGATGCCCCCGACTATCCCTATTAATCATTACGGCGG
        184
        657747
        1.5084%
        TAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGAACCTTGG
        182
        307651
        0.7055%
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATCTCGG
        172
        737917
        1.6923%
        GGCCGCTGAATACTAGCACCCCCAACTATCCCTATCAATCATTACTTCAG
        171
        159934
        0.3668%
        TAGCGTATATTAAAATTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTG
        156
        99612
        0.2284%
        TAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGAACTTTGG
        153
        929661
        2.1320%
        AACACCGTAATACGAATGCCCCCGTCTGTCCCTCTTAATCATTACCTCAA
        148
        595560
        1.3658%
        TAGCGTATACTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGAATTTCTG
        143
        105086
        0.2410%
        TAGCGTATATTTAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTTGG
        142
        520202
        1.1930%
        GACAATTGAATACGAATACCCCCAACTATCCCTATTAATCATTACCTTGG
        140
        87074
        0.1997%
        GACAATTGAATACGGATGCCCCCGACTATCCCTATTAATCATTACGGCGG
        140
        145721
        0.3342%

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Created with MultiQC

        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        Created with MultiQC

        Software Versions

        Software Versions lists versions of software tools extracted from file contents.

        SoftwareVersion
        FastQC0.12.1